Lightnews — Scholar-powered news

napari @napari.org · 2d

This initiative is born out of an URSSI Early-Career Fellowship awarded to @timmonko.bsky.social, and we thank them for their support!
urssi.us/blog/2025/09...

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napari @napari.org · 2d

Current goals:

1. Centralizing community resources to foster collaborative development.

2. Create an initiative to encourage best practices and highlight plugins.

3. Improve the plugin development infrastructure.

4. Create tooling to evaluate plugin health and support sustainable maintenance.

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napari @napari.org · 2d

Join the new plugin sustainability initiative!

Everyone is invited to fill out this interest form: forms.gle/iwX6P4tuooHK...

Follow along with initial discussion on Zulip: napari.zulipchat.com#narrow/chann...

The first zoom meeting will be this coming week: napari.org/stable/commu...

Meeting schedule

We hold regular meetings, the timings of which are available on our public calendar. If you are using napari or interested in how napari could be used in your work, please join one of our regular comm...

napari.org

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napari @napari.org · 6d

napari 0.6.5 is out! 🚀

Rapid-fire highlights are: colorbar overlay, custom startup script, and better and prettier documentation! Check out the full release notes here: napari.org/dev/release/...

Image depicting the napari viewer in grid mode with scale bars and color bars enabled

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napari @napari.org · 18d

Check out the cool new “release highlights history” page @timmonko.bsky.social cooked up for us! 😍

napari.org/stable/relea...

Best of all: it’s automatically generated from release notes so it’ll always stay up to date.

Release Notes

Each section shows the highlights from recent releases. Click on the version links to view the complete release notes. Last updated: September 17, 2025 Recent Releases (Last 3 Months): Latest features...

napari.org

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Alister Burt @alisterburt.bsky.social · 18d

the @napari.org crew came to town! 🥰

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Ignacio Arganda-Carreras @iarganda.bsky.social · 22d

Jumping 🕴️ now into "Practical session 4: Behavior Modeling" with @kevinyamauchi.bsky.social online! First things first, students are getting to know how to do #bioimage visualization in Python 🖥️🐍 using @napari.org👇

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SWC/GCNU Neuroinformatics Unit @neuroinformatics.dev · 21d

Lovely talk by Open Software Week participant @ishratz25.bsky.social on the challenges of using @brainglobe.info tools to identify very small regions, in very large images.

DrLachie @drlachie.bsky.social · 21d

Check out the PyCon Au talk from my team member: @ishratz25.bsky.social on the challenges and solutions(?) of cell counting in whole-brain light sheet images! Also give her a follow, she's new here.
www.youtube.com/watch?v=ccLn...

"Big Brains, Small Targets: Whole-Brain Image Analysis with Python" - Ishrat Zaman (PyCon AU 2025)

YouTube video by PyCon AU

www.youtube.com

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Giulia Paci @giuliapaci.bsky.social · Aug 11

Thrilled to share the first story from my postdoc! 🎉 A wonderful experiment + simulations collaboration. In the Drosophila wing, we find that 3D cell shapes affect signalling range and fine-tune developmental patterning www.biorxiv.org/content/10.1... Thread below ⬇️

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SWC/GCNU Neuroinformatics Unit @neuroinformatics.dev · 23d

In our next guest blog, GSoC participant Saarah Hussain talks about her summer working on @brainglobe.info.

neuroinformatics.dev/blog/gsoc_20...

Screenshot of the brainglobe-registration tool Saarah worked on during Google Summer of Code

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Daniel Krentzel @danielkrentzel.bsky.social · 28d

💻 You can directly try out CLEM-Reg for yourself with our @napari.org plugin where we also include a sample benchmark dataset.

Installation instructions are here 👉 github.com/krentzd/napa... (8/9)

www.youtube.com/watch?v=ud3z...

CLEM-Reg Tutorial

YouTube video by dkrentzel

www.youtube.com

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Daniel Krentzel @danielkrentzel.bsky.social · 28d

Super happy to see CLEM-Reg out in @natmethods.nature.com! A short thread on the algorithm behind it and how to try it out for yourself🧵(1/9)

www.nature.com/articles/s41...

CLEM-Reg: an automated point cloud-based registration algorithm for volume correlative light and electron microscopy - Nature Methods

CLEM-Reg automates the three-dimensional alignment of volume correlative light and electron microscopy datasets by leveraging probabilistic point cloud registration techniques for fast and accurate re...

www.nature.com

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Gaëlle Letort @gaellel.bsky.social · Sep 4

We (with @nicolasdray.bsky.social @zenlabpasteur.bsky.social) are happy to release officially FishFeats, our #napari plugin to streamline 3D smFish/RNA quantification! 🎊
Available here: github.com/gletort/Fish... user documentation: gletort.github.io/FishFeats/

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Kevin Dean @kevin-dean.bsky.social · Aug 28

u-Probe now can be run without a MATLAB license, and exports detection and tracking results in a format that can immediately be visualized with @napari.org!
github.com/DanuserLab/u...

GitHub - DanuserLab/u-probe: Processing of raw ratiometric biosensor images (for example based on FRET) into fully corrected "ratio maps" or "activation maps" — images showing the localized activation...

Processing of raw ratiometric biosensor images (for example based on FRET) into fully corrected "ratio maps" or "activation maps" — images showing the localized activation of th...

github.com

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Virginie Uhlmann @virginieuhlmann.bsky.social · Aug 25

Once is an exception, twice is a trend, thrice is a tradition!

Save the date for our now-traditional annual OME-NGFF extravaganza in Zurich!

Whether you’ve just heard about OME-NGFF and are curious to learn more or if you are working with it every day, there is something for everyone this year!

Joel Lüthi @joelluethi.bsky.social · Aug 25

We're happy to announce the 2025 International OME-NGFF workshop 🎉

📅 Dates:
- Symposium: Nov 10–11, 2025
- Hackathon: Nov 12–14, 2025

📍 Location: Zurich, Switzerland

Full details & registration: www.biovisioncenter.uzh.ch/en/events/Up...

#bioimaging #openscience #OMENGFF #OMEZarr

(1/x 🧵)

Visual of segmented human induced pluripotent stem cells with the key workshop dates: Symposium on November 10-11, Hackathon on November 12-14th in Zurich Switzerland

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Joel Lüthi @joelluethi.bsky.social · Aug 25

We're happy to announce the 2025 International OME-NGFF workshop 🎉

📅 Dates:
- Symposium: Nov 10–11, 2025
- Hackathon: Nov 12–14, 2025

📍 Location: Zurich, Switzerland

Full details & registration: www.biovisioncenter.uzh.ch/en/events/Up...

#bioimaging #openscience #OMENGFF #OMEZarr

(1/x 🧵)

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Lucien Hinderling @lhinderling.bsky.social · Aug 21

Each experiment gets a jupyter notebook, so experiments are reproducible and easy to run, even for users with little coding experience. Image processing pipeline is modular, easily adjusted to different cell lines or experiments. Using @napari.org as GUI. Code: github.com/pertzlab/rtm...

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Sebi @sebi06.bsky.social · Aug 20

I finally managed to upload the first version of the napari-czitools plugin (still in alpha - expect issues...)

- open complete CZI images or subsets
- read CZI metadata

pypi.org/project/napa...

or

github.com/sebi06/napar...

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napari @napari.org · Aug 18

🚀 napari 0.6.4 is out!

Highlights from this bite-sized release: launching scripts from the command line with `napari ` and making the console auto-focus when opened.

We’ll be announcing all future napari releases here, so stay tuned!

🔗 Release notes: napari.org/stable/relea...

napari 0.6.4

Sat, Aug 16, 2025 We’re happy to announce the release of napari 0.6.4! napari is a fast, interactive, multi-dimensional image viewer for Python. It’s designed for exploring, annotating, and analyzing ...

napari.org

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napari @napari.org · Aug 18

🚀 napari 0.6.4 is out!

Highlights from this bite-sized release: launching scripts from the command line with `napari ` and making the console auto-focus when opened.

We’ll be announcing all future napari releases here, so stay tuned!

🔗 Release notes: napari.org/stable/relea...

napari 0.6.4

Sat, Aug 16, 2025 We’re happy to announce the release of napari 0.6.4! napari is a fast, interactive, multi-dimensional image viewer for Python. It’s designed for exploring, annotating, and analyzing ...

napari.org

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SWC/GCNU Neuroinformatics Unit @neuroinformatics.dev · Aug 12

The BrainGlobe track started with an introduction to image analysis with @napari.org, and then tutorials on how to use @brainglobe.info to register data to atlases, and how to detect cells in whole-brain microscopy images.

All our tutorials are online: brainglobe.info/tutorials

#niu_osw

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Crick BioImage Analysis Symposium @cbias.bsky.social · Aug 11

📢 After #CBIAS2025, join our hands-on 2-day napari training by @crick.ac.uk @ucl.ac.uk @liverpooluni.bsky.social
From conda to plugins to Jupyter, practicals on real data with expert guidance.
For Python/ImageJ coders. Apply by 1 Sept – limited to 30! crick.ac.uk/whats-on/cbias-napari-workshop-2025

CBIAS napari workshop 2025

crick.ac.uk

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Campàs Lab @campaslab.bsky.social · Aug 6

Excited to share the final version of the STRESS software paper 🎉 Do you want to measure cell or tissue stresses using deformable beads or droplets, please check this paper:

nature.com/articles/s41...

Full access: rdcu.be/ezlGj

and the preprint thread below ⬇️

x.com/CampasLab/st...

x.com

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Juan Nunez-Iglesias @jni.codes · Aug 1

It's hard to express how much gratitude I have to everyone involved in the journey, both mine and @napari.org's, that has led to this point. #EurekaPrizes A small attempt below: 👇

Australian Museum Eureka Prizes @eurekaprizes.bsky.social · Jul 30

@napari.org @jni.codes is a finalist in the @ardc.edu.au Eureka Prize for Excellence in Research Software.

Learn more: youtu.be/0g_MkTa_NwQ

#EurekaPrizes

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Australian Museum Eureka Prizes @eurekaprizes.bsky.social · Jul 30

@napari.org @jni.codes is a finalist in the @ardc.edu.au Eureka Prize for Excellence in Research Software.

Learn more: youtu.be/0g_MkTa_NwQ

#EurekaPrizes

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